Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 104668 |
| Name | oriT_pRM2968-2  |
| Organism | Salmonella enterica subsp. enterica serovar Enteritidis str. RM2968 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP028153 (13492..13544 [-], 53 nt) |
| oriT length | 53 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 53 nt
>oriT_pRM2968-2
CACACGATTGTAACATGACCGGAACGGTCTTGTGTACAATCGGTATCGTGCCT
CACACGATTGTAACATGACCGGAACGGTCTTGTGTACAATCGGTATCGTGCCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 3282 | GenBank | WP_000338974 |
| Name | t4cp2_SEEERM2968_RS24470_pRM2968-2 |
UniProt ID | _ |
| Length | 652 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 652 a.a. Molecular weight: 73347.89 Da Isoelectric Point: 9.1391
>WP_000338974.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Enterobacteriaceae]
MDAKKTGGLILFLLLLLVGVLIASNYLGGYTALRYSSVDMSLLKWDTFHSVISTFSGNPQYKKLVFMAWF
GFSVPLIFFAIFMLIVVIGIMPKKVIYGDARLATDMDLSKSGFFPDKKSPYKHPPILIGKMFKGRYKKQF
IYFAGQQFLILYAPTRSGKGVGIVIPNCVNYPGSMVILDIKLENWFLSAGFRQKELGQECFLFAPAGYAE
TIDQAIKGQIRSHRWNPLDCVSRSDLLRETDLAKIAAILIPASDDPIWSDSARNLFVGLGLYLLDKERFH
LEQKAKGHNVPDVLVSISAILKTSVPDGGKDLAAWMGQEIENRSWISDKTKSFFFKFMSAPDRTRGSIET
NFSSPLSIFSNPITAEATNFSDFDIRDIRKKPMSIYLGLTPDALITHEKIVNLFFSLLVNENCRELPEHN
PDLKYQCLILLDEFTSMGKSEVIERAVGFTAGYNLRFMFILQNEGQGQKSDMYGQEGWTTFTENSAVVLY
YPPKSKNALAKKISEEIGVRDMKISKRSISSGGGKGGSSRTRNDDVIERPVLLPEEIVSLRDKKNKARNI
AIREIITSEFSRPFIANKIIWFEEPEFKRRVDIARNNHVDIPNLFTQEVMDEIAKIAEIYLPKAGGKKVM
VAGGNVITNPDLDNHDKTDVSE
MDAKKTGGLILFLLLLLVGVLIASNYLGGYTALRYSSVDMSLLKWDTFHSVISTFSGNPQYKKLVFMAWF
GFSVPLIFFAIFMLIVVIGIMPKKVIYGDARLATDMDLSKSGFFPDKKSPYKHPPILIGKMFKGRYKKQF
IYFAGQQFLILYAPTRSGKGVGIVIPNCVNYPGSMVILDIKLENWFLSAGFRQKELGQECFLFAPAGYAE
TIDQAIKGQIRSHRWNPLDCVSRSDLLRETDLAKIAAILIPASDDPIWSDSARNLFVGLGLYLLDKERFH
LEQKAKGHNVPDVLVSISAILKTSVPDGGKDLAAWMGQEIENRSWISDKTKSFFFKFMSAPDRTRGSIET
NFSSPLSIFSNPITAEATNFSDFDIRDIRKKPMSIYLGLTPDALITHEKIVNLFFSLLVNENCRELPEHN
PDLKYQCLILLDEFTSMGKSEVIERAVGFTAGYNLRFMFILQNEGQGQKSDMYGQEGWTTFTENSAVVLY
YPPKSKNALAKKISEEIGVRDMKISKRSISSGGGKGGSSRTRNDDVIERPVLLPEEIVSLRDKKNKARNI
AIREIITSEFSRPFIANKIIWFEEPEFKRRVDIARNNHVDIPNLFTQEVMDEIAKIAEIYLPKAGGKKVM
VAGGNVITNPDLDNHDKTDVSE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 31454..54972
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| SEEERM2968_RS25350 (SEEERM2968_24370) | 27938..28159 | - | 222 | Protein_33 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| SEEERM2968_RS24420 (SEEERM2968_24400) | 29744..30802 | - | 1059 | WP_343229170 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| SEEERM2968_RS24425 (SEEERM2968_24405) | 30815..31450 | - | 636 | WP_000934978 | A24 family peptidase | - |
| SEEERM2968_RS24430 (SEEERM2968_24410) | 31454..31936 | - | 483 | WP_001258095 | lytic transglycosylase domain-containing protein | virB1 |
| SEEERM2968_RS24435 (SEEERM2968_24415) | 32002..32559 | - | 558 | WP_000095048 | type 4 pilus major pilin | - |
| SEEERM2968_RS24440 (SEEERM2968_24420) | 32604..33713 | - | 1110 | WP_000974903 | type II secretion system F family protein | - |
| SEEERM2968_RS24445 (SEEERM2968_24425) | 33704..35257 | - | 1554 | WP_000466228 | ATPase, T2SS/T4P/T4SS family | virB11 |
| SEEERM2968_RS24450 (SEEERM2968_24430) | 35282..35776 | - | 495 | WP_000912555 | type IV pilus biogenesis protein PilP | - |
| SEEERM2968_RS24455 (SEEERM2968_24435) | 35760..37082 | - | 1323 | WP_010895889 | type 4b pilus protein PilO2 | - |
| SEEERM2968_RS24460 (SEEERM2968_24440) | 37121..38764 | - | 1644 | WP_001035589 | PilN family type IVB pilus formation outer membrane protein | - |
| SEEERM2968_RS24465 (SEEERM2968_24445) | 38757..39275 | - | 519 | WP_069057551 | sigma 54-interacting transcriptional regulator | virb4 |
| SEEERM2968_RS24470 (SEEERM2968_24450) | 39322..41280 | - | 1959 | WP_000338974 | type IV secretory system conjugative DNA transfer family protein | - |
| SEEERM2968_RS24475 (SEEERM2968_24455) | 41296..42351 | - | 1056 | WP_001059977 | P-type DNA transfer ATPase VirB11 | virB11 |
| SEEERM2968_RS24480 (SEEERM2968_24460) | 42426..43565 | - | 1140 | WP_024222071 | TrbI/VirB10 family protein | virB10 |
| SEEERM2968_RS24485 (SEEERM2968_24465) | 43555..44256 | - | 702 | WP_000274524 | TrbG/VirB9 family P-type conjugative transfer protein | - |
| SEEERM2968_RS24490 (SEEERM2968_24470) | 44322..45056 | - | 735 | WP_000432283 | type IV secretion system protein | virB8 |
| SEEERM2968_RS24500 (SEEERM2968_24480) | 45222..47579 | - | 2358 | WP_069057550 | VirB4 family type IV secretion system protein | virb4 |
| SEEERM2968_RS24505 (SEEERM2968_24485) | 47585..47905 | - | 321 | WP_010895893 | VirB3 family type IV secretion system protein | virB3 |
| SEEERM2968_RS24910 | 47976..48266 | - | 291 | WP_000865478 | TrbC/VirB2 family protein | virB2 |
| SEEERM2968_RS24515 (SEEERM2968_24495) | 48266..48850 | - | 585 | WP_001177116 | lytic transglycosylase domain-containing protein | virB1 |
| SEEERM2968_RS24520 (SEEERM2968_24500) | 48871..49269 | - | 399 | WP_001153669 | hypothetical protein | - |
| SEEERM2968_RS24525 (SEEERM2968_24505) | 49388..49825 | - | 438 | WP_000539665 | type IV pilus biogenesis protein PilM | - |
| SEEERM2968_RS24530 (SEEERM2968_24510) | 49831..51066 | - | 1236 | WP_000733391 | toxin co-regulated pilus biosynthesis Q family protein | - |
| SEEERM2968_RS24535 (SEEERM2968_24515) | 51069..51356 | - | 288 | WP_029785630 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| SEEERM2968_RS24540 (SEEERM2968_24520) | 51528..52163 | - | 636 | WP_000835769 | hypothetical protein | - |
| SEEERM2968_RS24545 (SEEERM2968_24525) | 52211..53020 | + | 810 | WP_024222072 | DUF5710 domain-containing protein | - |
| SEEERM2968_RS24550 (SEEERM2968_24530) | 53073..53327 | - | 255 | WP_000609210 | EexN family lipoprotein | - |
| SEEERM2968_RS24555 (SEEERM2968_24535) | 53330..53971 | - | 642 | WP_001434037 | type IV secretion system protein | - |
| SEEERM2968_RS24560 (SEEERM2968_24540) | 53977..54972 | - | 996 | WP_000276068 | type IV secretion system protein | virB6 |
| SEEERM2968_RS24565 (SEEERM2968_24545) | 54976..55233 | - | 258 | WP_000739144 | hypothetical protein | - |
| SEEERM2968_RS24570 (SEEERM2968_24550) | 55230..55532 | - | 303 | WP_000189499 | hypothetical protein | - |
| SEEERM2968_RS24580 (SEEERM2968_24560) | 55784..56338 | - | 555 | WP_227004539 | hypothetical protein | - |
| SEEERM2968_RS24590 (SEEERM2968_24570) | 56489..57151 | - | 663 | WP_001243159 | hypothetical protein | - |
| SEEERM2968_RS24915 | 57162..57332 | - | 171 | WP_000550721 | hypothetical protein | - |
| SEEERM2968_RS24595 (SEEERM2968_24575) | 57336..57779 | - | 444 | WP_000498521 | NfeD family protein | - |
| SEEERM2968_RS24600 (SEEERM2968_24580) | 57841..58794 | - | 954 | WP_072097371 | SPFH domain-containing protein | - |
| SEEERM2968_RS24920 | 58821..58997 | - | 177 | WP_000753050 | hypothetical protein | - |
| SEEERM2968_RS24605 (SEEERM2968_24585) | 58990..59205 | - | 216 | WP_001127357 | DUF1187 family protein | - |
| SEEERM2968_RS24610 (SEEERM2968_24590) | 59198..59650 | - | 453 | WP_000101552 | CaiF/GrlA family transcriptional regulator | - |
Host bacterium
| ID | 5107 | GenBank | NZ_CP028153 |
| Plasmid name | pRM2968-2 | Incompatibility group | IncI2 |
| Plasmid size | 60294 bp | Coordinate of oriT [Strand] | 13492..13544 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Enteritidis str. RM2968 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |